im still new in this so i dont know what is the problem so i still trying to install nanoplot on my device using WSL but i keep getting this: Collecting NanoPlot Using cached NanoPlot-1.40.0.tar.gz (41 kB) Collecting biopython Using cached biopython-1.79-cp38-cp38-manylinux_2_5_x86_64.manylinux1_x86_64.whl (2.3 MB) Collecting kaleido Using cached kaleido-0.2.1-py2.py3-none-manylinux1_x86_64.whl (79.9 MB) Collecting nanoget>=1.14.0 Using cached nanoget-1.16.1.tar.gz (23 kB) Collecting nanomath>=1.0.0 Using cached nanomath-1.2.1.tar.gz (17 kB) Collecting numpy>=1.16.5 Using cached numpy-1.23.1-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (17.1 MB) Collecting pandas>=1.1.0 Using cached pandas-1.4.3-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (11.7 MB) Collecting plotly>=5.4.0 Using cached plotly-5.10.0-py2.py3-none-any.whl (15.2 MB) Collecting pyarrow Using cached pyarrow-9.0.0-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (35.3 MB) Collecting pysam>0.10.0.0 Using cached pysam-0.19.1.tar.gz (3.9 MB) ERROR: Command errored out with exit status 1: command: /usr/bin/python3 -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-427fwwms/pysam/setup.py'"'"'; file='"'"'/tmp/pip-install-427fwwms/pysam/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(file);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, file, '"'"'exec'"'"'))' egg_info --egg-base /tmp/pip-install-427fwwms/pysam/pip-egg-info cwd: /tmp/pip-install-427fwwms/pysam/ Complete output (135 lines):

pysam: no cython available - using pre-compiled C

# pysam: htslib mode is shared
# pysam: HTSLIB_CONFIGURE_OPTIONS=None
# pysam: (sysconfig) CC=x86_64-linux-gnu-gcc -pthread
# pysam: (sysconfig) CFLAGS=-Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g   -fstack-protector-strong -Wformat -Werror=format-security  -g -fwrapv -O2
# pysam: (sysconfig) LDFLAGS=-Wl,-Bsymbolic-functions  -Wl,-z,relro -g -fwrapv -O2
checking for gcc... x86_64-linux-gnu-gcc -pthread
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether x86_64-linux-gnu-gcc -pthread accepts -g... yes
checking for x86_64-linux-gnu-gcc -pthread option to accept ISO C89... none needed
checking for ranlib... ranlib
checking for grep that handles long lines and -e... /usr/bin/grep
checking for C compiler warning flags... unknown
checking for pkg-config... no
checking for special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... no
checking shared library type for unknown-Linux... plain .so
checking whether the compiler accepts -fvisibility=hidden... yes
checking how to run the C preprocessor... x86_64-linux-gnu-gcc -pthread -E
checking for egrep... /usr/bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for stdlib.h... (cached) yes
checking for unistd.h... (cached) yes
checking for sys/param.h... yes
checking for getpagesize... yes
checking for working mmap... yes
checking for gmtime_r... yes
checking for fsync... yes
checking for drand48... yes
checking for srand48_deterministic... no
checking whether fdatasync is declared... yes
checking for fdatasync... yes
checking for library containing log... -lm
checking for zlib.h... yes
checking for inflate in -lz... yes
checking for library containing recv... none required
checking for bzlib.h... no
checking for BZ2_bzBuffToBuffCompress in -lbz2... no
configure: error: libbzip2 development files not found

The CRAM format may use bzip2 compression, which is implemented in HTSlib
by using compression routines from libbzip2 <http://www.bzip.org/>.

Building HTSlib requires libbzip2 development files to be installed on the
build machine; you may need to ensure a package such as libbz2-dev (on Debian
or Ubuntu Linux) or bzip2-devel (on RPM-based Linux distributions or Cygwin)
is installed.

Either configure with --disable-bz2 (which will make some CRAM files
produced elsewhere unreadable) or resolve this error to build HTSlib.
checking for gcc... x86_64-linux-gnu-gcc -pthread
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether x86_64-linux-gnu-gcc -pthread accepts -g... yes
checking for x86_64-linux-gnu-gcc -pthread option to accept ISO C89... none needed
checking for ranlib... ranlib
checking for grep that handles long lines and -e... /usr/bin/grep
checking for C compiler warning flags... unknown
checking for pkg-config... no
checking for special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... no
checking shared library type for unknown-Linux... plain .so
checking whether the compiler accepts -fvisibility=hidden... yes
checking how to run the C preprocessor... x86_64-linux-gnu-gcc -pthread -E
checking for egrep... /usr/bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for stdlib.h... (cached) yes
checking for unistd.h... (cached) yes
checking for sys/param.h... yes
checking for getpagesize... yes
checking for working mmap... yes
checking for gmtime_r... yes
checking for fsync... yes
checking for drand48... yes
checking for srand48_deterministic... no
checking whether fdatasync is declared... yes
checking for fdatasync... yes
checking for library containing log... -lm
checking for zlib.h... yes
checking for inflate in -lz... yes
checking for library containing recv... none required
checking for bzlib.h... no
checking for BZ2_bzBuffToBuffCompress in -lbz2... no
configure: error: libbzip2 development files not found

The CRAM format may use bzip2 compression, which is implemented in HTSlib
by using compression routines from libbzip2 <http://www.bzip.org/>.

Building HTSlib requires libbzip2 development files to be installed on the
build machine; you may need to ensure a package such as libbz2-dev (on Debian
or Ubuntu Linux) or bzip2-devel (on RPM-based Linux distributions or Cygwin)
is installed.

Either configure with --disable-bz2 (which will make some CRAM files
produced elsewhere unreadable) or resolve this error to build HTSlib.
config.mk:2: *** Resolve configure error first.  Stop.
Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "/tmp/pip-install-427fwwms/pysam/setup.py", line 375, in <module>
    htslib_make_options = run_make_print_config()
  File "/tmp/pip-install-427fwwms/pysam/setup.py", line 74, in run_make_print_config
    stdout = subprocess.check_output(["make", "-s", "print-config"])
  File "/usr/lib/python3.8/subprocess.py", line 415, in check_output
    return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
  File "/usr/lib/python3.8/subprocess.py", line 516, in run
    raise CalledProcessError(retcode, process.args,
subprocess.CalledProcessError: Command '['make', '-s', 'print-config']' returned non-zero exit status 2.
# pysam: htslib configure options: None
----------------------------------------

ERROR: Command errored out with exit status 1: python setup.py egg_info Check the logs for full command output.

i dont know how to fix it, if there's anything wrong could you please help?

wdecoster / NanoPlot

Command errored out #303

pysam: no cython available - using pre-compiled C